ArticleNucleic acids research2008
A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
111 citing papers in PubMed, 185 citations in OpenAlex.
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- CrebA regulation of secretory capacity: Genome-wide transcription profiling coupled with in vivo DNA binding studies.bioRxiv : the preprint server for biology · 2025Article
- Experimental approaches to investigate biophysical interactions between homeodomain transcription factors and DNA.Biochimica et biophysica acta. Gene regulatory mechanisms · 2025Review
- Two coacting shadow enhancers regulate twin of eyeless expression during early Drosophila development.Genetics · 2025Article
- Developmental and Housekeeping Genes: Two Types of Genetic Organization in theInternational journal of molecular sciences · 2024Review
- Decoding Non-coding Variants: Recent Approaches to Studying Their Role in Gene Regulation and Human Diseases.Frontiers in bioscience (Scholar edition) · 2024Review
- Global repression by tailless during segmentation.Developmental biology · 2024Article
- Multi-level regulation of even-skipped stripes by the ubiquitous factor Zelda.Development (Cambridge, England) · 2023Article
- A universal deep-learning model for zinc finger design enables transcription factor reprogramming.Nature biotechnology · 2023Article
- Wnt/β-catenin signalling is required for pole-specific chromatin remodeling during planarian regeneration.Nature communications · 2023Article
- The transcriptomic profile of Spodoptera frugiperda differs in response to a novel insecticide, cyproflanilide, compared to chlorantraniliprole and avermectin.BMC genomics · 2023Article
- Ribbon boosts ribosomal protein gene expression to coordinate organ form and function.The Journal of cell biology · 2022Article
- The Ets protein Pointed P1 represses Asense expression in type II neuroblasts by activating Tailless.PLoS genetics · 2022Article
- Discovery and Visualization of Age-Dependent Patterns in the Diurnal Transcriptome of Drosophila.Journal of circadian rhythms · 2022Article
- Fitting thermodynamic-based models: Incorporating parameter sensitivity improves the performance of an evolutionary algorithm.Mathematical biosciences · 2021Article
- Engineered dual selection for directed evolution of SpCas9 PAM specificity.Nature communications · 2021Article
- A Mutation in theG3 (Bethesda, Md.) · 2020Article
51 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Specificity data for groups of transcription factors (TFs) in a common regulatory network can be used to computationally identify the location of cis-regulatory modules in a genome. The primary limitation for this type of analysis is the paucity of specificity data that is available for the majority of TFs. We describe an omega-based bacterial one-hybrid system that provides a rapid method for characterizing DNA-binding specificities on a genome-wide scale. Using this system, 35 members of the Drosophila melanogaster segmentation network have been characterized, including representative members of all of the major classes of DNA-binding domains. A suite of web-based tools was created that uses this binding site dataset and phylogenetic comparisons to identify cis-regulatory modules throughout the fly genome. These tools allow specificities for any combination of factors to be used to perform rapid local or genome-wide searches for cis-regulatory modules. The utility of these factor specificities and tools is demonstrated on the well-characterized segmentation network. By incorporating specificity data on an additional 66 factors that we have characterized, our tools utilize approximately 14% of the predicted factors within the fly genome and provide an important new community resource for the identification of cis-regulatory modules.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.